A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2025-03-12, 13:43 PDT
based on data in:
/scratch/eanderson/TEST/mega-non-model-wgs-snakeflow/results/bqsr-round-0/qc/fastp
General Statistics
Showing 102/102 rows and 5/7 columns.
| Sample Name | % Duplication | M Reads After Filtering | GC content | % PF | % Adapter |
|---|---|---|---|---|---|
| M004147_M028_1A_S62_R1_001 | 20.4% | 45.5M | 43.0% | 98.0% | 25.5% |
| M004182_M028_5D_S61_R1_001 | 20.8% | 43.5M | 42.7% | 98.1% | 22.8% |
| M004225_M028_10G_S74_R1_001 | 22.3% | 22.7M | 43.1% | 98.2% | 12.6% |
| M004226_M028_10H_S75_R1_001 | 20.5% | 21.4M | 42.3% | 97.9% | 13.1% |
| M004444_M031_2B_S30_R1_001 | 20.1% | 25.9M | 42.6% | 97.7% | 10.6% |
| M004446_M031_2D_S3_R1_001 | 22.1% | 39.4M | 42.8% | 98.2% | 13.8% |
| M004452_M031_3B_S10_R1_001 | 20.9% | 37.6M | 43.1% | 98.0% | 13.4% |
| M004453_M031_3C_S29_R1_001 | 19.5% | 12.4M | 44.3% | 98.4% | 19.3% |
| M004465_M031_4G_S23_R1_001 | 20.6% | 28.9M | 42.9% | 97.9% | 9.5% |
| M004466_M031_4H_S9_R1_001 | 18.9% | 29.0M | 43.7% | 98.0% | 15.6% |
| M004477_M031_6C_S73_R1_001 | 22.2% | 35.2M | 43.0% | 98.1% | 8.9% |
| M004479_M031_6E_S71_R1_001 | 21.1% | 29.7M | 43.1% | 98.0% | 8.5% |
| M004487_M031_7E_S72_R1_001 | 21.3% | 29.5M | 43.4% | 97.9% | 9.4% |
| M004526_M031_12D_S45_R1_001 | 20.8% | 29.6M | 43.2% | 97.8% | 11.6% |
| M004955_M036_7E_S94_R1_001 | 21.4% | 46.8M | 42.4% | 98.3% | 20.6% |
| M004983_M036_11A_S49_R1_001 | 18.3% | 47.8M | 42.4% | 98.4% | 34.9% |
| M004984_M036_11B_S34_R1_001 | 20.5% | 35.0M | 43.2% | 98.3% | 18.4% |
| M004989_M036_11G_S48_R1_001 | 17.4% | 46.5M | 43.2% | 98.4% | 40.0% |
| M005579_M043_1E_S19_R1_001 | 20.4% | 22.4M | 42.2% | 97.9% | 12.7% |
| M005583_M043_2A_S39_R1_001 | 20.3% | 45.7M | 43.3% | 98.3% | 19.0% |
| M005592_M043_3B_S40_R1_001 | 19.6% | 34.5M | 44.6% | 98.3% | 24.5% |
| M005604_M043_4F_S18_R1_001 | 20.6% | 27.2M | 43.1% | 97.9% | 9.0% |
| M006760_M055_5E_S35_R1_001 | 19.1% | 30.2M | 43.4% | 97.9% | 7.8% |
| M006764_M055_6A_S36_R1_001 | 19.8% | 32.9M | 43.7% | 98.2% | 9.3% |
| M006766_M055_6C_S42_R1_001 | 19.5% | 33.1M | 43.2% | 97.9% | 13.9% |
| M006773_M055_7B_S41_R1_001 | 19.2% | 32.5M | 42.4% | 97.9% | 13.3% |
| M006800_M055_10E_S47_R1_001 | 19.1% | 45.3M | 42.8% | 98.3% | 27.4% |
| M006803_M055_10H_S91_R1_001 | 21.1% | 31.1M | 44.3% | 98.1% | 10.1% |
| M006806_M055_11C_S92_R1_001 | 19.6% | 31.5M | 43.0% | 98.0% | 8.5% |
| M006807_M055_11D_S93_R1_001 | 22.5% | 39.9M | 43.0% | 98.1% | 9.6% |
| M007450_M062_7G_S78_R1_001 | 20.9% | 27.3M | 43.1% | 97.9% | 6.9% |
| M007456_M062_8E_S79_R1_001 | 22.9% | 38.9M | 42.9% | 98.1% | 10.5% |
| M007591_M064_1D_S16_R1_001 | 22.5% | 35.1M | 43.2% | 98.1% | 11.4% |
| M007601_M064_2F_S32_R1_001 | 20.2% | 25.8M | 42.4% | 98.2% | 15.3% |
| M007625_M064_5F_S33_R1_001 | 22.0% | 45.8M | 43.2% | 98.4% | 19.6% |
| M007630_M064_6C_S28_R1_001 | 20.0% | 32.3M | 43.3% | 98.0% | 11.9% |
| M007742_M065_8C_S90_R1_001 | 21.4% | 31.0M | 43.1% | 97.8% | 6.8% |
| M007766_M065_11C_S77_R1_001 | 20.4% | 28.4M | 44.1% | 98.2% | 11.8% |
| M007878_M067_1C_S76_R1_001 | 22.4% | 40.3M | 42.6% | 98.0% | 11.8% |
| M007902_M067_4C_S84_R1_001 | 21.3% | 36.4M | 42.7% | 98.2% | 11.7% |
| M007907_M067_4H_S82_R1_001 | 21.6% | 37.8M | 42.7% | 98.1% | 14.7% |
| M007908_M067_5A_S83_R1_001 | 22.8% | 38.1M | 42.9% | 98.0% | 9.3% |
| M076176_M770_1C_S85_R1_001 | 21.4% | 41.8M | 42.3% | 98.2% | 20.1% |
| M076368_M772_1C_S24_R1_001 | 21.0% | 36.9M | 42.4% | 98.2% | 15.5% |
| M076372_M772_1G_S12_R1_001 | 21.3% | 40.3M | 43.1% | 98.2% | 11.5% |
| M076381_M772_2H_S4_R1_001 | 21.5% | 33.2M | 43.2% | 98.0% | 7.4% |
| M076382_M772_3A_S11_R1_001 | 20.8% | 37.6M | 42.6% | 98.0% | 17.0% |
| M076692_M775_5G_S86_R1_001 | 20.8% | 44.0M | 42.4% | 98.4% | 20.0% |
| M076702_M775_7A_S98_R1_001 | 21.4% | 43.7M | 42.8% | 98.2% | 19.3% |
| M076706_M775_7E_S87_R1_001 | 22.5% | 46.3M | 42.9% | 98.3% | 18.2% |
| M076712_M775_8C_S99_R1_001 | 23.0% | 41.7M | 42.5% | 98.2% | 17.8% |
| M076816_M776_9C_S65_R1_001 | 21.3% | 33.2M | 42.9% | 98.0% | 11.1% |
| M076851_M777_1F_S66_R1_001 | 21.7% | 36.7M | 42.6% | 98.1% | 15.3% |
| M076891_M777_6F_S81_R1_001 | 21.0% | 49.1M | 42.2% | 98.3% | 30.8% |
| M076895_M777_7B_S80_R1_001 | 20.8% | 39.2M | 42.6% | 98.2% | 19.3% |
| M077089_M779_7D_S63_R1_001 | 19.1% | 31.0M | 42.8% | 98.0% | 13.5% |
| M077113_M779_10D_S46_R1_001 | 20.8% | 48.1M | 42.9% | 97.8% | 24.5% |
| M077119_M779_11B_S101_R1_001 | 23.2% | 49.0M | 43.7% | 98.3% | 14.3% |
| M077120_M779_11C_S102_R1_001 | 22.2% | 48.7M | 43.8% | 98.4% | 16.8% |
| M077920_M789_1D_S64_R1_001 | 20.5% | 37.2M | 42.6% | 98.2% | 20.5% |
| M077964_M789_6H_S20_R1_001 | 21.2% | 38.6M | 42.5% | 98.1% | 14.6% |
| M077965_M789_7A_S1_R1_001 | 21.0% | 45.9M | 42.5% | 98.4% | 20.2% |
| M077975_M789_8C_S21_R1_001 | 20.4% | 39.1M | 42.4% | 98.3% | 21.2% |
| M077979_M789_8G_S2_R1_001 | 20.5% | 41.1M | 42.8% | 98.4% | 21.0% |
| M077986_M789_9F_S22_R1_001 | 20.6% | 39.3M | 42.5% | 98.3% | 19.9% |
| M078007_M789_12C_S31_R1_001 | 21.2% | 36.0M | 42.5% | 98.2% | 13.1% |
| M078008_M789_12D_S25_R1_001 | 20.4% | 35.1M | 42.6% | 98.2% | 14.9% |
| M078169_M791_8E_S67_R1_001 | 22.0% | 32.7M | 42.7% | 98.0% | 11.0% |
| M078686_M797_1B_S5_R1_001 | 20.9% | 46.0M | 42.8% | 98.3% | 16.1% |
| M078688_M797_1D_S13_R1_001 | 20.0% | 43.8M | 43.3% | 98.1% | 18.9% |
| M078689_M797_1E_S15_R1_001 | 21.6% | 37.5M | 43.0% | 98.2% | 14.1% |
| M078692_M797_1H_S6_R1_001 | 22.5% | 49.3M | 42.8% | 98.3% | 15.7% |
| M078694_M797_2B_S27_R1_001 | 22.6% | 43.4M | 42.7% | 98.1% | 16.1% |
| M078698_M797_2F_S14_R1_001 | 21.8% | 44.3M | 43.3% | 98.3% | 17.3% |
| M078711_M797_4C_S26_R1_001 | 22.2% | 38.4M | 42.4% | 98.2% | 20.0% |
| M078752_M797_9D_S58_R1_001 | 21.1% | 39.2M | 43.0% | 98.3% | 20.2% |
| M078764_M797_10H_S59_R1_001 | 20.4% | 35.4M | 42.8% | 97.8% | 15.5% |
| M078766_M797_11B_S95_R1_001 | 23.2% | 47.5M | 42.7% | 98.3% | 15.6% |
| M078771_M797_11G_S96_R1_001 | 21.3% | 47.7M | 42.5% | 98.2% | 24.0% |
| M078780_M797_12H_S60_R1_001 | 19.7% | 36.3M | 42.8% | 98.1% | 16.5% |
| M079054_M800_11B_S38_R1_001 | 20.6% | 42.3M | 44.1% | 98.3% | 18.7% |
| M079076_M801_1H_S43_R1_001 | 20.1% | 34.2M | 43.1% | 98.0% | 11.8% |
| M079191_M802_4C_S50_R1_001 | 19.7% | 49.6M | 43.0% | 98.3% | 26.5% |
| M079205_M802_6A_S51_R1_001 | 19.3% | 27.7M | 43.0% | 97.5% | 5.9% |
| M079248_M802_11D_S56_R1_001 | 22.0% | 33.5M | 43.5% | 98.1% | 8.0% |
| M079251_M802_11G_S57_R1_001 | 21.5% | 43.1M | 42.5% | 98.3% | 21.5% |
| M079258_M802_12F_S55_R1_001 | 20.8% | 37.9M | 42.4% | 98.2% | 19.2% |
| M079477_M805_4A_S100_R1_001 | 21.4% | 33.2M | 42.9% | 97.9% | 8.1% |
| M079484_M805_4H_S69_R1_001 | 21.0% | 34.0M | 42.9% | 98.0% | 8.6% |
| M079485_M805_5A_S70_R1_001 | 20.9% | 36.2M | 42.6% | 98.0% | 12.3% |
| M079547_M805_12G_S68_R1_001 | 22.0% | 41.1M | 42.7% | 98.1% | 13.7% |
| M079946_M810_2F_S53_R1_001 | 18.4% | 53.4M | 42.3% | 98.3% | 37.9% |
| M079957_M810_4A_S52_R1_001 | 20.0% | 48.1M | 43.4% | 98.2% | 26.4% |
| M080026_M810_12F_S54_R1_001 | 20.0% | 43.6M | 42.1% | 98.3% | 24.2% |
| M086592_M879_7E_S88_R1_001 | 22.8% | 44.6M | 42.6% | 98.3% | 15.6% |
| M086603_M879_8H_S89_R1_001 | 19.9% | 44.8M | 42.3% | 98.2% | 25.2% |
| M086735_M881_1D_S97_R1_001 | 21.5% | 42.3M | 42.9% | 98.3% | 16.3% |
| M086769_M881_5F_S8_R1_001 | 20.4% | 34.1M | 43.2% | 98.2% | 15.4% |
| M086773_M881_6B_S7_R1_001 | 23.0% | 39.5M | 43.1% | 98.2% | 12.4% |
| M086813_M881_11B_S17_R1_001 | 20.9% | 31.9M | 43.0% | 98.2% | 12.6% |
| M086821_M881_12B_S37_R1_001 | 21.0% | 51.4M | 42.6% | 98.3% | 21.1% |
| M086826_M881_12G_S44_R1_001 | 20.7% | 37.0M | 41.8% | 97.1% | 23.8% |
fastp
Version:
0.23.4
fastp An ultra-fast all-in-one FASTQ preprocessor (QC, adapters, trimming, filtering, splitting...).DOI: 10.1093/bioinformatics/bty560.
Filtered Reads
Filtering statistics of sampled reads.
Insert Sizes
Insert size estimation of sampled reads.
Created with MultiQC
Sequence Quality
Average sequencing quality over each base of all reads.
Created with MultiQC
GC Content
Average GC content over each base of all reads.
Created with MultiQC
N content
Average N content over each base of all reads.
Created with MultiQC
Software Versions
Software Versions lists versions of software tools extracted from file contents.
| Software | Version |
|---|---|
| fastp | 0.23.4 |
